Selected novel ncRNA candidates shown with supporting evidence. In each case, we show, from top to bottom, repeat families and SVM P-values; VISTA conservation tracks for maize and/or Brachypodium; genomics locations of candidate ncRNA repeats (noted “ncRNA repeats”); gene structure and orientation; and annotation tracks for tRNA, rRNA, and repeat regions. VISTA colors coding for regions of high conservation are as follows: exons (dark blue); UTRs (light blue); noncoding (pink). (A) This large intronic cluster contains four different repeat families, with candidate 78701.1 conserved in Brachypodium distachyon. (B) A family whose members are supported by two pieces of evidence: a full-length cDNA (noted FL-cDNA) annotated as non-protein-coding and a conservation in maize. (C) A family whose two members lie in the introns of two different genes. Candidate 92932.1 is conserved in maize.
